The evolution of land plants: a perspective from horizontal gene transfer

• Autorzy: Wang Q. , Sun H. , Huang J.
• Języki publikacji: EN

Abstrakty

EN

Recent studies suggest that horizontal gene transfer (HGT) played a significant role in the evolution of eukaryotic lineages. We here review the mechanisms of HGT in plants and the importance of HGT in land plant evolution. In particular, we discuss the role of HGT in plant colonization of land, phototropic response, C4 photosynthesis, and mitochondrial genome evolution.

Słowa kluczowe

EN

land plant; evolution; horizontal gene transfer; mitochondrial genome; adaptation; genetic information

• Wydawca: -
• Czasopismo: Acta Societatis Botanicorum Poloniae
• Rocznik: 2014
• Tom: 83
• Numer: 4
• Opis fizyczny: p.363-368,fig.,ref.

Twórcy

autor

Wang Q.

• Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China
• University of Chinese Academy of Sciences, Beijing 10049, China

autor

Sun H.

• Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China

autor

Huang J.

• Department of Biology, East Carolina University, Greenville, NC 27858, USA

Bibliografia

• 1. Ochman H, Lawrence JG, Groisman EA. Lateral gene transfer and the nature of bacterial innovation. Nature. 2000;405(6784):299–304.http://dx.doi.org/10.1038/35012500
• 2. Gogarten JP, Doolittle WF, Lawrence JG. Prokaryotic evolution in light of gene transfer. Mol Biol Evol. 2002;19(12):2226–2238.
• 3. Andersson JO. Lateral gene transfer in eukaryotes. Cell Mol Life Sci. 2005;62(11):1182–1197. http://dx.doi.org/10.1007/s00018-005-4539-z
• 4. Keeling PJ, Palmer JD. Horizontal gene transfer in eukaryotic evolution. Nat Rev Genet. 2008;9(8):605–618. http://dx.doi.org/10.1038/nrg2386
• 5. Andersson JO. Gene transfer and diversification of microbial eukaryotes. Annu Rev Microbiol. 2009;63:177–193. http://dx.doi.org/10.1146/ annurev.micro.091208.073203
• 6. Richardson AO, Palmer JD. Horizontal gene transfer in plants. J Exp Bot. 2006;58(1):1–9. http://dx.doi.org/10.1093/jxb/erl148
• 7. Huang J. Horizontal gene transfer in eukaryotes: the weak-link model. Bioessays. 2013;35(10):868–875. http://dx.doi.org/10.1002/bies.201300007
• 8. Dunning Hotopp JC. Horizontal gene transfer between bacteria and animals. Trends Genet. 2011;27(4):157–163. http://dx.doi.org/10.1016/j.tig.2011.01.005
• 9. Boto L. Horizontal gene transfer in the acquisition of novel traits by metazoans. Proc Biol Sci. 2014;281(1777):20132450. http://dx.doi.org/10.1098/rspb.2013.2450
• 10. Gogarten JP, Townsend JP. Horizontal gene transfer, genome innovation and evolution. Nat Rev Microbiol. 2005;3(9):679–687. http://dx.doi.org/10.1038/nrmicro1204
• 11. Huang J, Gogarten JP. Concerted gene recruitment in early plant evolution. Genome Biol. 2008;9(7):R109. http://dx.doi.org/10.1186/gb-2008-9-7-r109
• 12. Selosse MA, Albert B, Godelle B. Reducing the genome size of organelles favours gene transfer to the nucleus. Trends Ecol Evol. 2001;16(3):135–141. http://dx.doi.org/10.1016/S0169-5347(00)02084-X
• 13. Timmis JN, Ayliffe MA, Huang CY, Martin W. Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes. Nat RevGenet. 2004;5(2):123–135. http://dx.doi.org/10.1038/nrg1271
• 14. Kleine T, Maier UG, Leister D. DNA transfer from organelles to the nucleus: the idiosyncratic genetics of endosymbiosis. Annu RevPlant Biol. 2009;60(1):115–138. http://dx.doi.org/10.1146/annurev.arplant.043008.092119
• 15. Kurland CG, Canback B, Berg OG. Horizontal gene transfer: a critical view. Proc Natl Acad Sci USA. 2003;100(17):9658–9662. http://dx.doi. org/10.1073/pnas.1632870100
• 16. Bock R. The give-and-take of DNA: horizontal gene transfer in plants. Trends Plant Sci. 2010;15(1):11–22. http://dx.doi.org/10.1016/j.plants.2009.10.001
• 17. Bergthorsson U, Richardson AO, Young GJ, Goertzen LR, Palmer JD. Massive horizontal transfer of mitochondrial genes from diverseland plant donors to the basal angiosperm Amborella. Proc Natl AcadSci USA. 2004;101(51):17747–17752. http://dx.doi.org/10.1073/pnas.0408336102
• 18. Zhang D, Qi J, Yue J, Huang J, Sun T, Li S, et al. Root parasitic plant Orobanche aegyptiaca and shoot parasitic plant Cuscuta australisobtained Brassicaceae-specific strictosidine synthase-like genes byhorizontal gene transfer. BMC Plant Biol. 2014;14(1):19. http://dx.doi.org/10.1186/1471-2229-14-19
• 19. Davis CC, Wurdack KJ. Host-to-parasite gene transfer in flowering plants: phylogenetic evidence from Malpighiales. Science.2004;305(5684):676–678. http://dx.doi.org/10.1126/science.1100671
• 20. Xi Z, Bradley RK, Wurdack KJ, Wong K, Sugumaran M, Bomblies K, et al. Horizontal transfer of expressed genes in a parasiticflowering plant. BMC Genomics. 2012;13:227. http://dx.doi.org/10.1186/1471-2164-13-227
• 21. Xi Z, Wang Y, Bradley RK, Sugumaran M, Marx CJ, Rest JS, et al. Massive mitochondrial gene transfer in a parasitic flowering plantclade. PLoS Genet. 2013;9(2):e1003265. http://dx.doi.org/10.1371/journal.pgen.1003265
• 22. Mower JP, Stefanović S, Young GJ, Palmer JD. Plant genetics: gene transfer from parasitic to host plants. Nature. 2004;432(7014):165–166.http://dx.doi.org/10.1038/432165b
• 23. Li X, Zhang TC, Qiao Q, Ren Z, Zhao J, Yonezawa T, et al. Complete chloroplast genome sequence of holoparasite Cistanche deserticola(Orobanchaceae) reveals gene loss and horizontal gene transfer fromits host Haloxylon ammodendron (Chenopodiaceae). PLoS ONE.2013;8(3):e58747. http://dx.doi.org/10.1371/journal.pone.0058747
• 24. Sanchez-Puerta MV, Cho Y, Mower JP, Alverson AJ, Palmer JD. Frequent, phylogenetically local horizontal transfer of the cox1group I intron in flowering plant mitochondria. Mol Biol Evol.2008;25(8):1762–1777. http://dx.doi.org/10.1093/molbev/msn129
• 25. Christin PA, Edwards EJ, Besnard G, Boxall SF, Gregory R, Kellogg EA, et al. Adaptive evolution of C4 photosynthesis through recurrentlateral gene transfer. Curr Biol. 2012;22(5):445–449. http://dx.doi.org/10.1016/j.cub.2012.01.054
• 26. Svab Z, Maliga P. Exceptional transmission of plastids and mitochondria from the transplastomic pollen parent and its impact on transgenecontainment. Proc Natl Acad Sci USA. 2007;104(17):7003–7008. http://dx.doi.org/10.1073/pnas.0700063104
• 27. Diao X, Freeling M, Lisch D. Horizontal transfer of a plant transposon. PLoS Biol. 2006;4(1):e5. http://dx.doi.org/10.1371/journal.pbio.0040005
• 28. Vallenback P, Jaarola M, Ghatnekar L, Bengtsson BO. Origin and timing of the horizontal transfer of a PgiC gene from Poa to Festucaovina. Mol Phylogenet Evol. 2008;46(3):890–896. http://dx.doi.org/10.1016/j.ympev.2007.11.031
• 29. Rice DW, Alverson AJ, Richardson AO, Young GJ, Sanchez-Puerta MV, Munzinger J, et al. Horizontal transfer of entire genomesvia mitochondrial fusion in the angiosperm Amborella. Science. 2013;342(6165):1468–1473. http://dx.doi.org/10.1126/science.1246275
• 30. Park JM, Manen JF, Schneeweiss GM. Horizontal gene transfer of a plastid gene in the non-photosynthetic flowering plants Orobancheand Phelipanche (Orobanchaceae). Mol Phylogenet Evol.2007;43(3):974–985. http://dx.doi.org/10.1016/j.ympev.2006.10.011
• 31. Sanderson MJ, Thorne JL, Wikström N, Bremer K. Molecular evidence on plant divergence times. Am J Bot. 2004;91(10):1656–1665. http://dx.doi.org/10.3732/ajb.91.10.1656
• 32. Emiliani G, Fondi M, Fani R, Gribaldo S. A horizontal gene transfer at the origin of phenylpropanoid metabolism: a key adaptation of plantsto land. Biol Direct. 2009;4:7. http://dx.doi.org/10.1186/1745-6150-4-7
• 33. Yue J, Hu X, Sun H, Yang Y, Huang J. Widespread impact of horizontal gene transfer on plant colonization of land. Nat Commun. 2012;3:1152.http://dx.doi.org/10.1038/ncomms2148
• 34. Yue J, Hu X, Huang J. Horizontal gene transfer in the innovation and adaptation of land plants. Plant Signal Behav. 2013;8(5). http://dx.doi.org/10.4161/psb.24130
• 35. Dixon RA, Achnine L, Kota P, Liu CJ, Reddy MSS, Wang L. The phenylpropanoid pathway and plant defence – a genomics perspective.Mol Plant Pathol. 2002;3(5):371–390. http://dx.doi.org/10.1046/j.1364-3703.2002.00131.x
• 36. Dixon RA, Paiva NL. Stress-induced phenylpropanoid metabolism. Plant Cell. 1995;7(7):1085–1097. http://dx.doi.org/10.1105/tpc.7.7.1085
• 37. Yue J, Hu X, Huang J. Origin of plant auxin biosynthesis. Trends Plant Sci. 2014;19(12):764–770. http://dx.doi.org/10.1016/j.tplants.2014.07.004
• 38. Ligrone R, Duckett JG, Renzaglia KS. Major transitions in the evolution of early land plants: a bryological perspective. Ann Bot.2012;109(5):851–871. http://dx.doi.org/10.1093/aob/mcs017
• 39. Jun JH, Ha CM, Nam HG. Involvement of the VEP1 gene in vascular strand development in Arabidopsis thaliana. Plant Cell Physiol.2002;43(3):323–330. http://dx.doi.org/10.1093/pcp/pcf042
• 40. Yang Z, Zhou Y, Huang J, Hu Y, Zhang E, Xie Z, et al. Ancient horizontal transfer of transaldolase-like protein gene and its role in plantvascular development. New Phytol. 2014 (in press). http://dx.doi.org/10.1111/nph.13183
• 41. Cai C, Ouyang S, Wang Y, Fang Z, Rong J, Geng L, et al. An Early Silurian vascular plant. Nature. 1996;379(6566):592–592. http://dx.doi.org/10.1038/379592a0
• 42. Möglich A, Yang X, Ayers RA, Moffat K. Structure and function of plant photoreceptors. Annu Rev Plant Biol. 2010;61:21–47. http://dx.doi.org/10.1146/annurev-arplant-042809-112259
• 43. Kawai H, Kanegae T, Christensen S, Kiyosue T, Sato Y, Imaizumi T, et al. Responses of ferns to red light are mediated by an unconventionalphotoreceptor. Nature. 2003;421(6920):287–290. http://dx.doi.org/10.1038/nature01310
• 44. Schneider H, Schuettpelz E, Pryer KM, Cranfill R, Magallón S, Lupia R. Ferns diversified in the shadow of angiosperms. Nature.2004;428(6982):553–557. http://dx.doi.org/10.1038/nature02361
• 45. Schuettpelz E, Pryer KM. Evidence for a Cenozoic radiation of ferns in an angiosperm-dominated canopy. Proc Natl Acad SciUSA. 2009;106(27):11200–11205. http://dx.doi.org/10.1073/pnas.0811136106
• 46. Li FW, Villarreal JC, Kelly S, Rothfels CJ, Melkonian M, Frangedakis E, et al. Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns. Proc Natl Acad Sci USA. 2014;111(18):6672–6677.http://dx.doi.org/10.1073/pnas.1319929111
• 47. Osborne CP, Beerling DJ. Nature’s green revolution: the remarkable evolutionary rise of C4 plants. Philos Trans R Soc Lond B Biol Sci.2006;361(1465):173–194. http://dx.doi.org/10.1098/rstb.2005.1737
• 48. Ibrahim DG, Burke T, Ripley BS, Osborne CP. A molecular phylogeny of the genus Alloteropsis (Panicoideae, Poaceae) suggestsan evolutionary reversion from C4 to C3 photosynthesis. Ann Bot.2009;103(1):127–136. http://dx.doi.org/10.1093/aob/mcn204
• 49. Christin PA, Freckleton RP, Osborne CP. Can phylogenetics identify C4 origins and reversals? Trends Ecol Evol. 2010;25(7):403–409. http://dx.doi.org/10.1016/j.tree.2010.04.007
• 50. Rice DW, Palmer JD. An exceptional horizontal gene transfer in plastids: gene replacement by a distant bacterial paralog and evidence thathaptophyte and cryptophyte plastids are sisters. BMC Biol. 2006;4:31.http://dx.doi.org/10.1186/1741-7007-4-31
• 51. Moszczynski K, Mackiewicz P, Bodyl A. Evidence for horizontal gene transfer from bacteroidetes bacteria to dinoflagellate minicircles. Mol Biol Evol. 2012;29(3):887–892. http://dx.doi.org/10.1093/molbev/ msr276
• 52. Bergthorsson U, Adams KL, Thomason B, Palmer JD. Widespread horizontal transfer of mitochondrial genes in flowering plants. Nature.2003;424(6945):197–201. http://dx.doi.org/10.1038/nature01743
• 53. Mower JP, Stefanović S, Hao W, Gummow JS, Jain K, Ahmed D, et al. Horizontal acquisition of multiple mitochondrial genes from a parasiticplant followed by gene conversion with host mitochondrial genes. BMC Biol. 2010;8(1):150. http://dx.doi.org/10.1186/1741-7007-8-150
• 54. Soltis PS, Soltis DE. Angiosperm phylogeny: a framework for studies of genome evolution. In: Greilhuber J, Dolezel J, Wendel JF, editors.Plant genome diversity. Vienna: Springer; 2013. p. 1–11. (vol 2). http://dx.doi.org/10.1007/978-3-7091-1160-4_1
• 55. Hao W, Palmer JD. Fine-scale mergers of chloroplast and mitochondrial genes create functional, transcompartmentally chimeric mitochondrial genes. Proc Natl Acad Sci USA. 2009;106(39):16728–16733.http://dx.doi.org/10.1073/pnas.0908766106
• 56. Hao W, Richardson AO, Zheng Y, Palmer JD. Gorgeous mosaic of mitochondrial genes created by horizontal transfer and gene conversion.Proc Natl Acad Sci USA. 2010;107(50):21576–21581. http://dx.doi.org/10.1073/pnas.1016295107
• 57. Maumus F, Epert A, Nogué F, Blanc G. Plant genomes enclose footprints of past infections by giant virus relatives. Nat Commun.2014;5:4268. http://dx.doi.org/10.1038/ncomms5268
• 58. Richards TA, Soanes DM, Foster PG, Leonard G, Thornton CR, Talbot NJ. Phylogenomic analysis demonstrates a pattern of rare andancient horizontal gene transfer between plants and fungi. Plant Cell.2009;21(7):1897–1911. http://dx.doi.org/10.1105/tpc.109.065805
• 59. Won H, Renner SS. Horizontal gene transfer from flowering plants to Gnetum. Proc Natl Acad Sci USA. 2003;100(19):10824–10829. http://dx.doi.org/10.1073/pnas.1833775100
• 60. Yoshida S, Maruyama S, Nozaki H, Shirasu K. Horizontal gene transfer by the parasitic plant Striga hermonthica. Science.2010;328(5982):1128–1128. http://dx.doi.org/10.1126/science.1187145
• 61. Intrieri MC, Buiatti M. The horizontal transfer of Agrobacterium rhizogenes genes and the evolution of the genus Nicotiana. Mol PhylogenetEvol. 2001;20(1):100–110. http://dx.doi.org/10.1006/mpev.2001.0927
• 62. Nickrent DL, Blarer A, Qiu YL, Vidal-Russell R, Anderson FE. Phylogenetic inference in Rafflesiales: the influence of rate heterogeneityand horizontal gene transfer. BMC Evol Biol. 2004;4(1):40. http:// dx.doi.org/10.1186/1471-2148-4-40
• 63. Schönenberger J, Anderberg AA, Sytsma KJ. Molecular phylogenetics and patterns of floral evolution in the Ericales. Int J Plant Sci.2005;166(2):265–288. http://dx.doi.org/10.1086/427198
• 64. Davis CC, Anderson WR, Wurdack KJ. Gene transfer from a parasitic flowering plant to a fern. Proc Biol Sci. 20052005;272(1578):2237–2242. http://dx.doi.org/10.1098/rspb.2005.3226

Identyfikatory

DOI

10.5586/asbp.2014.043